Genomic Location: HiC_scaffold_14:728456...747264
NR annotation: XP_002163509.3, DNA-directed RNA polymerase II subunit RPB2 [Hydra vulgaris]
Species Chrysaora quinquecirrha · all data for this species · gene families
| CDS |
| evm.model.HiC_scaffold_14.41 |
| Transcript |
| evm.model.HiC_scaffold_14.41 |
| Protein |
| evm.model.HiC_scaffold_14.41 |
| UniProt accession | Description |
|---|---|
| Q8CFI7 | DNA-directed RNA polymerase II subunit RPB2 OS=Mus musculus OX=10090 GN=Polr2b PE=1 SV=2 |
| P30876 | DNA-directed RNA polymerase II subunit RPB2 OS=Homo sapiens OX=9606 GN=POLR2B PE=1 SV=1 |
| A5PJW8 | DNA-directed RNA polymerase II subunit RPB2 OS=Bos taurus OX=9913 GN=POLR2B PE=1 SV=1 |
| Family type | Membership / link |
|---|---|
| Orthogroup (gene family) | OG0001356 (this species only) · gene tree & orthology |
| Pfam accession | Pfam name | Description | Type | Source |
|---|---|---|---|---|
| PF04567 all species → | RNA_pol_Rpb2_5 | RNA polymerase Rpb2, domain 5 | Domain | Interproscan |
| PF04561 all species → | RNA_pol_Rpb2_2 | RNA polymerase Rpb2, domain 2 | Domain | Interproscan |
| PF04560 all species → | RNA_pol_Rpb2_7 | RNA polymerase Rpb2, domain 7 | Domain | Interproscan |
| PF04566 all species → | RNA_pol_Rpb2_4 | RNA polymerase Rpb2, domain 4 | Domain | Interproscan |
| PF00562 all species → | RNA_pol_Rpb2_6 | RNA polymerase Rpb2, domain 6 | Domain | Interproscan |
| PF04563 all species → | RNA_pol_Rpb2_1 | RNA polymerase beta subunit | Family | Interproscan |
| PF04565 all species → | RNA_pol_Rpb2_3 | RNA polymerase Rpb2, domain 3 | Domain | Interproscan |
| InterPro term | Type | Description | Source |
|---|---|---|---|
| IPR007647 all species → | Domain | RNA polymerase Rpb2, domain 5 | Interproscan |
| IPR015712 all species → | Family | DNA-directed RNA polymerase, subunit 2 | Interproscan |
| IPR007642 all species → | Domain | RNA polymerase Rpb2, domain 2 | Interproscan |
| IPR007641 all species → | Domain | RNA polymerase Rpb2, domain 7 | Interproscan |
| IPR007646 all species → | Domain | RNA polymerase Rpb2, domain 4 | Interproscan |
| IPR007120 all species → | Domain | DNA-directed RNA polymerase, subunit 2, hybrid-binding domain | Interproscan |
| IPR007644 all species → | Domain | RNA polymerase, beta subunit, protrusion | Interproscan |
| IPR007645 all species → | Domain | RNA polymerase Rpb2, domain 3 | Interproscan |
| IPR014724 all species → | Homologous_superfamily | RNA polymerase Rpb2, OB-fold | Interproscan |
| IPR037033 all species → | Homologous_superfamily | DNA-directed RNA polymerase, subunit 2, hybrid-binding domain superfamily | Interproscan |
| IPR037034 all species → | Homologous_superfamily | RNA polymerase Rpb2, domain 2 superfamily | Interproscan |
| PANTHER term | Description | Source |
|---|---|---|
| PTHR20856 all species → | DNA-DIRECTED RNA POLYMERASE I SUBUNIT 2 | Interproscan |
| GO term | Category | Description | Source |
|---|---|---|---|
| GO:0006351 all species → | Biological Process | DNA-templated transcription | Interproscan |
| GO:0003899 all species → | Molecular Function | DNA-directed 5'-3' RNA polymerase activity | Interproscan |
| GO:0032549 all species → | Molecular Function | ribonucleoside binding | Interproscan |
| GO:0003677 all species → | Molecular Function | DNA binding | Interproscan |
| GO:0001055 all species → | Molecular Function | RNA polymerase II activity | Interproscan |
| GO:0005665 all species → | Cellular Component | RNA polymerase II, core complex | Interproscan |
| KO | Enzyme | Enzyme ID | Pathway | Map ID | Source |
|---|---|---|---|---|---|
| K03010 | RPB2, POLR2B; DNA-directed RNA polymerase II subunit RPB2 | EC:2.7.7.6 | DNA repair and recombination proteins | ko03400 | deepkoala |
Genes whose expression across the transcriptome samples of Chrysaora quinquecirrha tracks this one. Counts are over the whole network; the network view itself draws at most 100 partners per query gene (CNIDO_NET_TOP_K), so a hub gene can show fewer edges than the number below.
No co-expression network has been built for this species, so this gene has no partners to show. Networks are available for the species listed on the Network Analysis page.
Whether this gene can be visualised in the single-cell atlases of Chrysaora quinquecirrha, and in which cell types it is a marker. Expression is stored per cell, so the violin plot and the cell-type means are computed in the viewer — open a dataset to see them.
No single-cell dataset has been published for this species. The atlases that do exist are listed in the Cell Atlas.
Chromatin and DNA-methylation data covering this gene. Peak calls are listed per sample with the genomic region the peak falls in; DNA methylation is listed as sample availability only, because those tables are queried by the DNA Methylation page itself.
No epigenomic data has been deposited for this species. The assays that exist across the site are described in the Epigenomic Data module.
Every tool below opens with this gene already entered, so you land on the analysis rather than on an empty form. Links open in a new tab.
| Analysis | What it does | Status | |
|---|---|---|---|
| Primer design | Design PCR / qPCR primers on this gene’s sequence with the published primer3 settings. Opens with the primers already computed. | template found | open → |
| BLAST | Search this gene’s sequence against the CnidoSite BLAST databases. The query is filled in and the species’ database is preselected — press Run to start. | template found | open → |
| Expression heatmap | Draw this gene’s expression as a heatmap across all RNA-seq samples, and compare it with the genes you add next to it. | no expression matrix | – |
| Gene family / orthogroup | Look this gene up in the single-copy orthogroups built from the high-quality cnidarian genomes, and see which other species carry an orthologue. | open → | |
| Gene set analysis | Start a gene-set enrichment analysis with this gene as the seed list. Add more genes on that page before running it. | open → |
